Package: cola
Type: Package
Title: A Framework for Consensus Partitioning
Version: 1.2.1
Date: 2019-12-31
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Depends: R (>= 3.6.0)
Imports: grDevices, graphics, grid, stats, utils, ComplexHeatmap (>=
        2.0.0), matrixStats, GetoptLong, circlize (>= 0.4.7),
        GlobalOptions (>= 0.1.0), clue, parallel, RColorBrewer,
        cluster, skmeans, png, mclust, crayon, methods, xml2,
        microbenchmark, httr, knitr, markdown, digest, impute, brew,
        Rcpp (>= 0.11.0), BiocGenerics, eulerr
Suggests: genefilter, mvtnorm, testthat (>= 0.3), data.tree,
        dendextend, samr, pamr, kohonen, NMF, WGCNA, Rtsne, umap,
        clusterProfiler, ReactomePA, DOSE, AnnotationDbi, gplots,
        hu6800.db
Description: Subgroup classification is a basic task in
  genomic data analysis, especially for gene expression and DNA methylation data
  analysis. It can also be used to test the agreement to known clinical
  annotations, or to test whether there exist significant batch effects. The
  cola package provides a general framework for subgroup classification by
  consensus partitioning. It has the following features: 1. It modularizes the
  consensus partitioning processes that various methods can be easily
  integrated. 2. It provides rich visualizations for interpreting the results.
  3. It allows running multiple methods at the same time and provides
  functionalities to compare results straightforwardly. 4. It provides a new
  method to extract features which are more efficient to separate subgroups. 5.
  It generates detailed reports for the complete analysis.
URL: https://github.com/jokergoo/cola,
        https://jokergoo.github.io/cola_collection/
VignetteBuilder: knitr
biocViews: Clustering, GeneExpression, Classification, Software
License: MIT + file LICENSE
LinkingTo: Rcpp
git_url: https://git.bioconductor.org/packages/cola
git_branch: RELEASE_3_10
git_last_commit: ce9b863
git_last_commit_date: 2019-12-31
Date/Publication: 2019-12-31
NeedsCompilation: yes
Packaged: 2020-01-01 05:48:16 UTC; biocbuild
Built: R 3.6.2; i386-w64-mingw32; 2020-01-01 13:43:28 UTC; windows
Archs: i386, x64
